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Field

Term
Gene name

Class

Subclass

Chromosome

External id

In atlas

Reliability

Reliability

Reliability

Validation

Method

Validation

Method

Validation

Method

Validation

Location

Searches

Tissue

Cell type

Expression

Tissue

Specificity

Cell line

Specificity

Cancer

Specificity

Tissue

Detectable

Cell line

Detectable

Cancer

Detectable

Cancer

Prognosis

Category

Score

Score

Score

Antibodies

Column

 
 
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BCL6
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  • PATHOLOGY

PATHOLOGY ATLAS

GENE/PROTEIN

Antibody validation

Dictionary

Level of antibody staining/expression





High
Medium
Low
Not detected

GENERAL INFORMATION

Gene namei

Gene name according to HGNC.

BCL6

Gene descriptioni

Gene description according to HGNC.

B-cell CLL/lymphoma 6

Protein classi

Protein class the gene product belongs to according to selected gene lists. List of protein classes.

Cancer-related genes
Disease related genes
Predicted intracellular proteins
Transcription factors

Predicted localizationi

Protein localization predicted from several bioinformatic algorithms.

Read more

Intracellular

Number of transcriptsi

Number of protein-coding transcribed from this gene as defined by Ensembl.

6
SHOW MORE

HUMAN PROTEIN ATLAS INFORMATION

RNA categoryi

RNA category is based on mRNA expression levels in the analyzed samples (RNA assay description). The categories include: tissue/cell line enriched, group enriched, tissue/cell line enhanced, expressed in all, mixed and not detected. RNA category is calculated separately for The Cancer Genome Atlas (TCGA) data from cancer tissues and internally generated Human Protein Atlas (HPA) data from normal tissues and cell lines.

TCGA (cancer tissue):Expressed in all
HPA (cell line):Cell line enhanced (Daudi, U-698)
HPA (normal tissue):Expressed in all

Protein evidencei

Protein evidence scores are generated from several independent sources and are classified as evidence at i) protein level, ii) transcript level, iii) no evidence, or iv) not available.

Evidence at protein level

Protein expression
normal tissuei

A summary of the overall protein expression pattern across the analyzed normal tissues. The summary is based on knowledge-based annotation.

"Estimation of protein expression could not be performed. View primary data." is shown for genes analyzed with a knowledge-based approach where available RNA-seq and gene/protein characterization data has been evaluated as not sufficient in combination with immunohistochemistry data to yield a reliable estimation of the protein expression profile.

Read more

Nuclear expression, mainly in lymphoid tissues.

ANTIBODY IHC RELIABILITY

Data reliability
descriptioni

Standardized explanatory sentences with additional information required for full understanding of the knowledge-based expression profile.

Antibody staining mainly not consistent with RNA expression data.

Reliability scorei

Reliability score (score description), divided into Supported, Approved, or Uncertain, is evaluated in normal tissues and based on consistency between the staining pattern of one antibody or several antibodies with RNA-seq data and available gene/protein characterization data.

Read more

Supported based on 2 antibodies.
HPA004899 , CAB000307
SHOW MORE

PROGNOSTIC SUMMARYi

Kaplan-Meier plots for all cancers where high expression of this gene has significant (p<0.001) association with patient survival are shown in this summary. Whether the prognosis is favourable or unfavourable is indicated in brackets. Each Kaplan-Meier plot is clickable and redirects to a detailed page that includes individual expression and survival data for patients with the selected cancer.

Prognostic marker in renal cancer (unfavourable).
Renal cancer p<0.001
Show all

RNA EXPRESSION OVERVIEWi

RNA expression overview shows RNA-seq data from The Cancer Genome Atlas (TCGA).

TCGA dataseti
RNA-seq data in 17 cancer types are reported as median FPKM (number Fragments Per Kilobase of exon per Million reads), generated by the The Cancer Genome Atlas (TCGA). RNA cancer tissue category is calculated based on mRNA expression levels across all 17 cancer tissues and include: cancer tissue enriched, cancer group enriched, cancer tissue enhanced, expressed in all, mixed and not detected. To access cancer specific RNA and prognostic data, click on the cancer name.

Read more
RNA cancer category: Expressed in all

PROTEIN EXPRESSIONi

Antibody staining in 20 different cancers is summarized by a selection of four standard cancer tissue samples representative of the overall staining pattern. From left: colorectal cancer, breast cancer, prostate cancer and lung cancer. An additional fifth image can be added as a complement. The assay and annotation is described here. Note that samples used for immunohistochemistry by the Human Protein Atlas do not correspond to samples in the TCGA dataset.

For histological reference, visit the histological dictionary.

Colorectal cancer
Breast cancer
Prostate cancer
Lung cancer
Lymphoma

STAINING SUMMARYi

For each cancer, the fraction of samples with protein expression level high, medium, low, or not detected are provided by the blue-scale color-coding (as described by the color-coding scale in the box to the left). The length of the bar represents the number of patient samples analyzed (max=12 patients). The images and annotations can be accessed by clicking on the cancer name or protein expression bar. If more than one antibody is analyzed, the tabs at the top of the staining summary section can be used to toggle between the different antibodies. The mouse-over function displays additional data for the features in the staining summary view.

Next to the cancer staining data, the protein expression data of normal tissues or specific cell types corresponding to each cancer are shown and protein expression levels are indicated by the blue-scale color coding.

HPA004899
CAB000307

Cancer

Cancer staining

Protein
expression of
normal tissue

Breast cancer
 
Carcinoid
 
Cervical cancer
 
Colorectal cancer
 
 
Endometrial cancer
 
 
Glioma
 
Head and neck cancer
 
 
Liver cancer
 
 
Lung cancer
 
 
Lymphoma
 
 
 

Cancer

Cancer staining

Protein
expression of
normal tissue

Melanoma
 
Ovarian cancer
 
Pancreatic cancer
 
Prostate cancer
 
Renal cancer
 
Skin cancer
 
Stomach cancer
 
 
Testis cancer
 
Thyroid cancer
 
Urothelial cancer
 

Staining summaryi

A manually written summary of the overall protein expression pattern across the analyzed cancer tissues.

Most malignancies were negative. Single lymphomas, gliomas, ovarian and breast cancers showed strong nuclear staining.

Cancer

Cancer staining

Protein
expression of
normal tissue

Breast cancer
 
Carcinoid
 
Cervical cancer
 
Colorectal cancer
 
 
Endometrial cancer
 
 
Glioma
 
Head and neck cancer
 
 
Liver cancer
 
 
Lung cancer
 
 
Lymphoma
 
 
 

Cancer

Cancer staining

Protein
expression of
normal tissue

Melanoma
 
Ovarian cancer
 
Pancreatic cancer
 
Prostate cancer
 
Renal cancer
 
Skin cancer
 
Stomach cancer
 
 
Testis cancer
 
Thyroid cancer
 
Urothelial cancer
 

Staining summaryi

A manually written summary of the overall protein expression pattern across the analyzed cancer tissues.

Selected cases of lymphomas showed strong nuclear positivity. Few cases of gastic cancer showed cytoplasmic immunoreactivity. Remaining cancers were negative.

GENE INFORMATIONi

Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.

Gene name

BCL6 (HGNC Symbol)

Synonyms

BCL5, BCL6A, LAZ3, ZBTB27, ZNF51

Description

B-cell CLL/lymphoma 6 (HGNC Symbol)

Entrez gene summary

The protein encoded by this gene is a zinc finger transcription factor and contains an N-terminal POZ domain. This protein acts as a sequence-specific repressor of transcription, and has been shown to modulate the transcription of STAT-dependent IL-4 responses of B cells. This protein can interact with a variety of POZ-containing proteins that function as transcription corepressors. This gene is found to be frequently translocated and hypermutated in diffuse large-cell lymphoma (DLCL), and may be involved in the pathogenesis of DLCL. Alternatively spliced transcript variants encoding different protein isoforms have been found for this gene. [provided by RefSeq, Aug 2015]

Chromosome

3

Cytoband

q27.3

Chromosome location (bp)

187721377 - 187745727

Protein evidence

Evidence at protein level (all genes)

Ensembl

ENSG00000113916 (version 83.38)

Entrez gene

604

UniProt

P41182 (UniProt - Evidence at protein level)

neXtProt

NX_P41182

Antibodypedia

BCL6 antibodies

PROTEIN BROWSERi

The protein browser displays the antigen location on the target protein(s) and the features of the target protein. The tabs at the top of the protein view section can be used to switch between the different splice variants to which an antigen has been mapped.

At the top of the view, the position of the antigen (identified by the corresponding HPA identifier) is shown as a green bar. A yellow triangle on the bar indicates a <100% sequence identity to the protein target.

Under the antigens, the maximum percent sequence identity of the protein to all other proteins from other human genes is displayed, using a sliding window of 10 aa residues (HsID 10) or 50 aa residues (HsID 50) (read more).

If a signal peptide is predicted by a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius (turquoise) and/or transmembrane regions (orange) are predicted by MDM, these are displayed.

Low complexity regions are shown in yellow and InterPro regions in green. Common (purple) and unique (grey) regions between different splice variants of the gene are also displayed (read more), and at the bottom of the protein view is the protein scale.

BCL6-001
BCL6-004
BCL6-007
BCL6-008
BCL6-010
BCL6-201

PROTEIN INFORMATIONi

The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database.

The ENSP identifier links to the Ensembl website protein summary, while the ENST identifier links to the Ensembl website transcript summary for the selected splice variant. The data in the UniProt column can be expanded to show links to all matching UniProt identifiers for this protein.

The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class.

The Gene Ontology terms assigned to this protein are listed if expanding the Gene ontology column. The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide (according to a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius) and the number of predicted transmembrane region(s) (according to MDM) are also reported.

Splice variant

UniProt

Protein class

Gene ontology

Length & mass

Signal peptide
(predicted)

Transmembrane regions
(predicted)

BCL6-001
ENSP00000384371
ENST00000406870
P41182 [Direct mapping]
B-cell lymphoma 6 protein
Show all
Predicted intracellular proteins
Transcription factors
   Zinc-coordinating DNA-binding domains
Cancer-related genes
   Candidate cancer biomarkers
   COSMIC somatic mutations in cancer genes
   COSMIC Somatic Mutations
   COSMIC Missense Mutations
   COSMIC Translocations
Disease related genes
Show all
GO:0000060 [protein import into nucleus, translocation]
GO:0000122 [negative regulation of transcription from RNA polymerase II promoter]
GO:0000902 [cell morphogenesis]
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding]
GO:0001161 [intronic transcription regulatory region sequence-specific DNA binding]
GO:0001227 [transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding]
GO:0001953 [negative regulation of cell-matrix adhesion]
GO:0002467 [germinal center formation]
GO:0002634 [regulation of germinal center formation]
GO:0002829 [negative regulation of type 2 immune response]
GO:0002903 [negative regulation of B cell apoptotic process]
GO:0003677 [DNA binding]
GO:0003682 [chromatin binding]
GO:0003700 [transcription factor activity, sequence-specific DNA binding]
GO:0005515 [protein binding]
GO:0005634 [nucleus]
GO:0005657 [replication fork]
GO:0006351 [transcription, DNA-templated]
GO:0006357 [regulation of transcription from RNA polymerase II promoter]
GO:0006954 [inflammatory response]
GO:0006974 [cellular response to DNA damage stimulus]
GO:0007266 [Rho protein signal transduction]
GO:0007283 [spermatogenesis]
GO:0008104 [protein localization]
GO:0008285 [negative regulation of cell proliferation]
GO:0030036 [actin cytoskeleton organization]
GO:0030183 [B cell differentiation]
GO:0030308 [negative regulation of cell growth]
GO:0030890 [positive regulation of B cell proliferation]
GO:0031065 [positive regulation of histone deacetylation]
GO:0031490 [chromatin DNA binding]
GO:0032764 [negative regulation of mast cell cytokine production]
GO:0035024 [negative regulation of Rho protein signal transduction]
GO:0042092 [type 2 immune response]
GO:0042127 [regulation of cell proliferation]
GO:0043065 [positive regulation of apoptotic process]
GO:0043066 [negative regulation of apoptotic process]
GO:0043087 [regulation of GTPase activity]
GO:0043380 [regulation of memory T cell differentiation]
GO:0043565 [sequence-specific DNA binding]
GO:0045595 [regulation of cell differentiation]
GO:0045596 [negative regulation of cell differentiation]
GO:0045629 [negative regulation of T-helper 2 cell differentiation]
GO:0045666 [positive regulation of neuron differentiation]
GO:0045746 [negative regulation of Notch signaling pathway]
GO:0045892 [negative regulation of transcription, DNA-templated]
GO:0046872 [metal ion binding]
GO:0048294 [negative regulation of isotype switching to IgE isotypes]
GO:0048821 [erythrocyte development]
GO:0050727 [regulation of inflammatory response]
GO:0050776 [regulation of immune response]
GO:0051272 [positive regulation of cellular component movement]
GO:2000773 [negative regulation of cellular senescence]
Show all
706 aa
78.8 kDa
No 0
BCL6-004
ENSP00000232014
ENST00000232014
P41182 [Direct mapping]
B-cell lymphoma 6 protein
Show all
Predicted intracellular proteins
Transcription factors
   Zinc-coordinating DNA-binding domains
Cancer-related genes
   Candidate cancer biomarkers
   COSMIC somatic mutations in cancer genes
   COSMIC Somatic Mutations
   COSMIC Missense Mutations
   COSMIC Translocations
Disease related genes
Show all
GO:0000060 [protein import into nucleus, translocation]
GO:0000122 [negative regulation of transcription from RNA polymerase II promoter]
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding]
GO:0001227 [transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding]
GO:0002634 [regulation of germinal center formation]
GO:0002903 [negative regulation of B cell apoptotic process]
GO:0003682 [chromatin binding]
GO:0003700 [transcription factor activity, sequence-specific DNA binding]
GO:0005515 [protein binding]
GO:0005634 [nucleus]
GO:0005657 [replication fork]
GO:0006351 [transcription, DNA-templated]
GO:0006954 [inflammatory response]
GO:0006974 [cellular response to DNA damage stimulus]
GO:0030308 [negative regulation of cell growth]
GO:0042092 [type 2 immune response]
GO:0042127 [regulation of cell proliferation]
GO:0043065 [positive regulation of apoptotic process]
GO:0043565 [sequence-specific DNA binding]
GO:0045595 [regulation of cell differentiation]
GO:0045892 [negative regulation of transcription, DNA-templated]
GO:0046872 [metal ion binding]
GO:0050727 [regulation of inflammatory response]
GO:0050776 [regulation of immune response]
Show all
706 aa
78.8 kDa
No 0
BCL6-007
ENSP00000414455
ENST00000438077
C9JL16 [Direct mapping]
B-cell lymphoma 6 protein
Show all
Predicted intracellular proteins
Cancer-related genes
   COSMIC somatic mutations in cancer genes
   COSMIC Somatic Mutations
   COSMIC Missense Mutations
   COSMIC Translocations
Show all
GO:0000122 [negative regulation of transcription from RNA polymerase II promoter]
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding]
GO:0001227 [transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding]
GO:0005515 [protein binding]
GO:0042092 [type 2 immune response]
GO:0042127 [regulation of cell proliferation]
GO:0045595 [regulation of cell differentiation]
GO:0050727 [regulation of inflammatory response]
Show all
104 aa
11.8 kDa
No 0
BCL6-008
ENSP00000415574
ENST00000430339
C9JCS5 [Direct mapping]
B-cell lymphoma 6 protein
Show all
Predicted intracellular proteins
Cancer-related genes
   COSMIC somatic mutations in cancer genes
   COSMIC Somatic Mutations
   COSMIC Missense Mutations
   COSMIC Translocations
Show all
GO:0000122 [negative regulation of transcription from RNA polymerase II promoter]
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding]
GO:0001227 [transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding]
GO:0005515 [protein binding]
GO:0042092 [type 2 immune response]
GO:0042127 [regulation of cell proliferation]
GO:0045595 [regulation of cell differentiation]
GO:0050727 [regulation of inflammatory response]
Show all
122 aa
13.9 kDa
No 0
BCL6-010
ENSP00000413122
ENST00000450123
P41182 [Direct mapping]
B-cell lymphoma 6 protein
Show all
Predicted intracellular proteins
Transcription factors
   Zinc-coordinating DNA-binding domains
Cancer-related genes
   Candidate cancer biomarkers
   COSMIC somatic mutations in cancer genes
   COSMIC Somatic Mutations
   COSMIC Missense Mutations
   COSMIC Translocations
Disease related genes
Show all
GO:0000060 [protein import into nucleus, translocation]
GO:0000122 [negative regulation of transcription from RNA polymerase II promoter]
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding]
GO:0001227 [transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding]
GO:0002634 [regulation of germinal center formation]
GO:0002903 [negative regulation of B cell apoptotic process]
GO:0003682 [chromatin binding]
GO:0003700 [transcription factor activity, sequence-specific DNA binding]
GO:0005515 [protein binding]
GO:0005634 [nucleus]
GO:0005657 [replication fork]
GO:0006351 [transcription, DNA-templated]
GO:0006954 [inflammatory response]
GO:0006974 [cellular response to DNA damage stimulus]
GO:0030308 [negative regulation of cell growth]
GO:0042092 [type 2 immune response]
GO:0042127 [regulation of cell proliferation]
GO:0043065 [positive regulation of apoptotic process]
GO:0043565 [sequence-specific DNA binding]
GO:0045595 [regulation of cell differentiation]
GO:0045892 [negative regulation of transcription, DNA-templated]
GO:0046872 [metal ion binding]
GO:0050727 [regulation of inflammatory response]
GO:0050776 [regulation of immune response]
Show all
650 aa
72.4 kDa
No 0
BCL6-201
ENSP00000479784
ENST00000621333
P41182 [Direct mapping]
B-cell lymphoma 6 protein
Show all
Predicted intracellular proteins
Transcription factors
   Zinc-coordinating DNA-binding domains
Cancer-related genes
   Candidate cancer biomarkers
   COSMIC somatic mutations in cancer genes
   COSMIC Somatic Mutations
   COSMIC Missense Mutations
   COSMIC Translocations
Disease related genes
Show all
GO:0000060 [protein import into nucleus, translocation]
GO:0000122 [negative regulation of transcription from RNA polymerase II promoter]
GO:0000977 [RNA polymerase II regulatory region sequence-specific DNA binding]
GO:0001227 [transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding]
GO:0002634 [regulation of germinal center formation]
GO:0002903 [negative regulation of B cell apoptotic process]
GO:0003682 [chromatin binding]
GO:0003700 [transcription factor activity, sequence-specific DNA binding]
GO:0005515 [protein binding]
GO:0005634 [nucleus]
GO:0005657 [replication fork]
GO:0006351 [transcription, DNA-templated]
GO:0006954 [inflammatory response]
GO:0006974 [cellular response to DNA damage stimulus]
GO:0030308 [negative regulation of cell growth]
GO:0042092 [type 2 immune response]
GO:0042127 [regulation of cell proliferation]
GO:0043065 [positive regulation of apoptotic process]
GO:0043565 [sequence-specific DNA binding]
GO:0045595 [regulation of cell differentiation]
GO:0045892 [negative regulation of transcription, DNA-templated]
GO:0046872 [metal ion binding]
GO:0050727 [regulation of inflammatory response]
GO:0050776 [regulation of immune response]
Show all
650 aa
72.4 kDa
No 0

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